Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Blood
Cell type
CD8+ T cells
NA
NA

Attributes by original data submitter

Sample

source_name
mouse CD8+ T cells
strain
OT-I TCR transgenic Rag1-/- mice
cell type
in vitro stimulated CD8+ T cells
tagchip antibody
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
10 million cells were harvested, crosslinked with 1% formaldehyde, sonicated, and then subjected to chromatin immunoprecipitation with anti-Blimp-1 antibody. 300-500 bp DNA fragments were obtained after reverse-crosslinking. To generate libraries, DNA fragments were ligated to Illumina’s adapters according to Illumina’s instructions. Briefly, DNA fragments were end-repaired using an END-IT DNA REPAIR KIT#ER0720 Epicentre. The blunt, phosphorylated DNAs were treated with Klenow fragment (Exo-minus, NEB M0212M 50U/ul) and dATP to generate A base overhang. These fragments were ligated with Illumina adapters using a FAST LINK KIT #LK11025 Epicentre. After adapter ligation, DNAs were PCR-amplified with Illumina primers (Primer1.1 and Primer2.1) for 17 cycles and library fragments of 300-500 bp were extracted from an agarose gel.

Sequencing Platform

instrument_model
Illumina Genome Analyzer

mm10

Number of total reads
34007466
Reads aligned (%)
76.0
Duplicates removed (%)
26.4
Number of peaks
62037 (qval < 1E-05)

mm9

Number of total reads
34007466
Reads aligned (%)
75.7
Duplicates removed (%)
26.2
Number of peaks
61955 (qval < 1E-05)

Base call quality data from DBCLS SRA